3C3V

Crystal structure of peanut major allergen ara h 3

Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.73 Å
  • R-Value Free: 0.248 
  • R-Value Work: 0.186 

wwPDB Validation 3D Report Full Report


This is version 1.2 of the entry. See complete history. 

Literature

Crystal structure of Ara h 3, a major allergen in peanut.

Jin, T., Guo, F., Chen, Y.W., Howard, A., Zhang, Y.Z.

(2009) Mol.Immunol. 46: 1796-1804

  • DOI: 10.1016/j.molimm.2009.01.023

  • PubMed Abstract: 

    • The prevalence of food allergy has increased dramatically in recent years. Tremendous research progress has been made in understanding the pathophysiological mechanisms of allergy and in identifying and characterizing food allergens. Peanut is a majo ...

    The prevalence of food allergy has increased dramatically in recent years. Tremendous research progress has been made in understanding the pathophysiological mechanisms of allergy and in identifying and characterizing food allergens. Peanut is a major food allergen source and Ara h 3 is a major peanut allergen. Using overlapping short peptides, several linear IgE-binding epitopes in Ara h 3 have been defined before. However, the structure of Ara h 3 of the native allergen is not clear and information on conformational epitopes is lacking. Structural characterization of allergens is required for understanding the allergenicity of food allergens and for the development of immunotherapeutic agents. Previously, we have reported the crystallization of Ara h 3 purified from raw peanut. Here we report the crystal structure of Ara h 3 at 1.73A resolution. Mapping of the previously defined linear epitopes on the crystal structure of Ara h 3 indicated that linear epitopes with more solvent exposure were those indicated by the literature to react with more patient sera. The structure of Ara h 3 may be used to assess the importance of conformational epitopes in further investigations.

    Organizational Affiliation: 

    Department of Biological, Chemical, and Physical Sciences, Illinois Institute of Technology, Chicago, IL 60616, United States.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Arachin Arah3 isoform
A
510Arachis hypogaeaMutation(s): 0 
Find proteins for B5TYU1 (Arachis hypogaea)
Go to UniProtKB:  B5TYU1
Small Molecules
Ligands 1 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
NA
Query on NA
Download SDF File 
Download CCD File 
A
SODIUM ION
Na
FKNQFGJONOIPTF-UHFFFAOYSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.73 Å
  • R-Value Free: 0.248 
  • R-Value Work: 0.186 
  • Space Group: P 63 2 2
Unit Cell:
Length (Å)Angle (°)
a = 144.929α = 90.00
b = 144.929β = 90.00
c = 86.924γ = 120.00
Software Package:
Software NamePurpose
HKL-2000data scaling
SCALEPACKdata scaling
HKL-2000data collection
PDB_EXTRACTdata extraction
REFMACrefinement
HKL-2000data reduction
DENZOdata reduction
PHASERphasing

Structure Validation

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View more in-depth experimental data

Entry History 

Deposition Data

  • Deposited Date: 2008-01-28 
  • Released Date: 2009-02-24 
  • Deposition Author(s): Jin, T., Zhang, Y.

Revision History 

  • Version 1.0: 2009-02-24
    Type: Initial release
  • Version 1.1: 2011-07-13
    Type: Version format compliance
  • Version 1.2: 2017-10-25
    Type: Refinement description